High speed becomes an important development direction of flywheel energy storage system (FESS) for higher energy storage density. However, the high speed leads to a wide-range and rapid speed variation (tens of thousands of revolutions in seconds) and a limited frequency modulation index, both of which aggravate the current harmonics and deteriorate the robustness of the discharge control, and even lead to instability. To address this issue, this article proposes a robust and practical discharge control strategy for high-speed FESS with <italic xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">RLC</i> filter, which realizes speed adaptation and harmonic suppression. In this scheme, the linear extended state observer and two-degree-of-freedom internal model control (TDOF-IMC) are applied to FESS in the framework of linear active disturbance rejection control (LADRC). Besides, considering that high-speed FESS usually require sensorless control due to magnetic bearings, a reduced-order Luenberger observer for the investigated FESS is proposed. The salient feature of this strategy is to introduce the TDOF-IMC containing FESS dynamic information into LADRC, so that the discharge control is both practical and robust. Experiments and simulations verify the effectiveness of the control strategy.